Which WADs did you want running in PAL 60? In any case, some can and some can't:

WiiWare - Yes (in most cases)
N64 - Yes, a guide has been made (although you must use a JP/US rom) - http://gbatemp.net/index.php?showtopic=127...amp;hl=n64+60hz
SNES - Yes, on a US/JP WAD or inject a rom into a SNES WAD that runs in PAL60 like Mario Picross.
NES - Possible, but the only way is to inject a NES rom into a PAL NES WAD that runs in PAL60 like Graidus 2.
Mega Drive - No (I've tried with no luck)
Neo Geo - No (Same problem as the Mega Drive)
MSX - No (Same problem as the Mega Drive)
Commodore 64 - I've not looked into.
Virtual Console - I've not looked into.